Noise and robustness in the evolution of novel protein phenotypes

Project Information

NoiseRobustEvo

Grant agreement ID: 739874

DOI 10.3030/739874

Project closed

EC signature date 24 May 2017

Start date 1 October 2017

End date 31 March 2023

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 2 383 444,00

EU contribution € 2 383 444,00

Coordinated by

UNIVERSITAT ZURICH
Switzerland

Publications

Peer reviewed articles (21)

Signaling pathways have an inherent need for noise to acquire information.

Author(s): Azpeitia, Eugenio; Balanzario, Eugenio P; Wagner, Andreas (
Published in: BMC Bioinformatics, 21:462, 2020, ISSN 1471-2105
Publisher: BioMed Central
DOI: 10.1186/s12859-020-03778-x

Gene expression noise can promote the fixation of beneficial mutations in fluctuating environments.

Author(s): Schmutzer, Michael; Wagner, Andreas
Published in: PLoS Computational Biology, 16(10):e1007727, 2020, ISSN 1553-734X
Publisher: Public Library of Science
DOI: 10.1101/2020.02.13.947275

The length scale of multivalent interactions is evolutionarily conserved in fungal and vertebrate phase-separating proteins.

Author(s): Pouria Dasmeh; Pouria Dasmeh; Pouria Dasmeh; Roman Doronin; Roman Doronin; Andreas Wagner
Published in: Genetics, 220(1):iyab184, Issue 35, 2022, ISSN 0016-6731
Publisher: Genetics Society of America
DOI: 10.1093/genetics/iyab184

Natural Selection on the Phase-Separation Properties of FUS during 160 My of Mammalian Evolution

Author(s): Dasmeh, Pouria; Wagner, Andreas
Published in: Molecular Biology and Evolution, Issue Volume 38, Issue 3, 2021, Page(s) 940–951, ISSN 0737-4038
Publisher: Oxford University Press
DOI: 10.1093/molbev/msaa258

Mistranslation Reduces Mutation Load in Evolving Proteins through Negative Epistasis with DNA Mutations.

Author(s): Jia Zheng; Jia Zheng; Ning Guo; Andreas Wagner; Andreas Wagner; Andreas Wagner
Published in: Molecular Biology and Evolution, Issue 46, 2021, ISSN 0737-4038
Publisher: Oxford University Press
DOI: 10.1093/molbev/msab206

Selection enhances protein evolvability by increasing mutational robustness and foldability.

Author(s): Jia Zheng; Jia Zheng; Ning Guo; Andreas Wagner; Andreas Wagner; Andreas Wagner
Published in: Science, 370(6521):eabb5962, Issue 40, 2020, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.abb5962

Yeast Proteins may Reversibly Aggregate like Amphiphilic Molecules.

Author(s): Pouria Dasmeh; Pouria Dasmeh; Pouria Dasmeh; Andreas Wagner
Published in: Journal of Molecular Biology, 434(2):167352, Issue 38, 2022, ISSN 0022-2836
Publisher: Academic Press
DOI: 10.1016/j.jmb.2021.167352

Adaptive gene misregulation.

Author(s): Andreas Wagner
Published in: Genetics, 217(3):iyaa044, Issue 37, 2021, ISSN 0016-6731
Publisher: Genetics Society of America
DOI: 10.1093/genetics/iyaa044

Mistranslation can promote the exploration of alternative evolutionary trajectories in enzyme evolution

Author(s): Zheng, Jia; Bratulic, Sinisa; Licher, Heidi E.L.; Wagner, Andreas
Published in: Journal of Evolutionary Biology, Issue Volume 34, issue 8, 2021, Page(s) 1302-1315, ISSN 1010-061X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/jeb.13892

RNA-mediated gene regulation is less evolvable than transcriptional regulation

Author(s): Payne, Joshua L; Khalid, Fahad; Wagner, Andreas
Published in: PNAS, Issue 3, 2018, ISSN 1091-6490
Publisher: Highwire Press
DOI: 10.5167/uzh-167214

The architecture of an empirical genotype-phenotype map

Author(s): Aguilar-Rodríguez, José; Peel, Leto; Stella, Massimo; Wagner, Andreas; Payne, Joshua L.
Published in: Evolution, 72 (6), Issue 11, 2018, ISSN 1558-5646
Publisher: Wiley
DOI: 10.3929/ethz-b-000274406

High mutation rates limit evolutionary adaptation in Escherichia coli

Author(s): Kathleen Sprouffske, José Aguilar-Rodríguez, Paul Sniegowski, Andreas Wagner
Published in: PLOS Genetics, Issue 14/4, 2018, Page(s) e1007324, ISSN 1553-7404
Publisher: PLOS
DOI: 10.1371/journal.pgen.1007324

Cryptic genetic variation accelerates evolution by opening access to diverse adaptive peaks

Author(s): Jia Zheng, Joshua L. Payne, Andreas Wagner
Published in: Science, Issue 365/6451, 2019, Page(s) 347-353, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.aax1837

The causes of evolvability and their evolution

Author(s): Joshua L. Payne, Andreas Wagner
Published in: Nature Reviews Genetics, Issue 20/1, 2019, Page(s) 24-38, ISSN 1471-0056
Publisher: Nature Publishing Group
DOI: 10.1038/s41576-018-0069-z

Chaperonin overproduction and metabolic erosion caused by mutation accumulation in Escherichia coli

Author(s): Aguilar-Rodríguez, José; Fares, Mario A; Wagner, Andreas
Published in: Aguilar-Rodríguez, José; Fares, Mario A; Wagner, Andreas (2019). Chaperonin overproduction and metabolic erosion caused by mutation accumulation in Escherichia coli. FEMS Microbiology Letters, 366(10):fnz121., Issue 1, 2019, ISSN 0378-1097
Publisher: Blackwell
DOI: 10.5167/uzh-182142

GroEL/S Overexpression Helps to Purge Deleterious Mutations and Reduce Genetic Diversity during Adaptive Protein Evolution

Author(s): Iyengar, Bharat Ravi; Wagner, Andreas
Published in: Moelecular Biology and Evolution, Issue Volume 39, 2022, Page(s) Issue 6, ISSN 1537-1719
Publisher: Oxford University Press
DOI: 10.1093/molbev/msac047

Short Residence Times of DNA-Bound Transcription Factors Can Reduce Gene Expression Noise and Increase the Transmission of Information in a Gene Regulation System

Author(s): Eugenio Azpeitia, Andreas Wagner
Published in: Frontiers in Molecular Biosciences, Issue 7, 2020, ISSN 2296-889X
Publisher: frontiers in molecular biosciences
DOI: 10.3389/fmolb.2020.00067

Low protein expression enhances phenotypic evolvability by intensifying selection on folding stability

Author(s): Karve, Shraddha; Dasmeh, Pouria; Zheng, Jia; Wagner, Andreas
Published in: Nature Ecology & Evolution, Issue 6, 2022, Page(s) 1155–1164, ISSN 2397-334X
Publisher: Nature Publishing Group
DOI: 10.1038/s41559-022-01797-w

Adaptive evolvability through direct selection instead of indirect, second-order selection.

Author(s): Wagner, Andreas
Published in: Journal of Experimental Zoology. Part B: Molecular and Developmental Evolution:Epub ahead of print., Issue 42, 2021, ISSN 1552-5007
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/jez.b.23071

Information theory can help quantify the potential of new phenotypes to originate as exaptations.

Author(s): Wagner, Andreas
Published in: Frontiers in Ecology and Evolution, 8:564071., 2020, ISSN 2296-701X
Publisher: Frontiers Research Foundation
DOI: 10.3389/fevo.2020.564071

Bacterial Hsp90 predominantly buffers but does not potentiate the phenotypic effects of deleterious mutations during fluorescent protein evolution.

Author(s): Iyengar, Bharat Ravi; Wagner, Andreas
Published in: Genetics, Issue Vol. 222, Issue 4, December 2022, 2022, Page(s) iyac154, ISSN 1943-2631
Publisher: Oxford University Press
DOI: 10.1093/genetics/iyac154